Research workbench
Nanodisc reconstituted human ABCB1 in complex with MRK16 Fab and vincristine
Analyse Nanodisc reconstituted human ABCB1 in complex with MRK16 Fab and vincristine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7A69
- Type
- protein
- Length
- 1,596 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Multidrug resistance protein 1; MRK16 Fab-fragment light chain; MRK16 Fab-fragment heavy…
- EC
- 7.6.2.2, 7.6.2.1
- UniProt
- P08183
- Ligands
- CLR, R1Q
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 3 distinct chains · 45% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Multidrug resistance protein 1 (EC 7.6.2.2, 7.6.2.1) | protein | 1164 | 60% helix, 9% strand | P08183 |
| B | MRK16 Fab-fragment light chain | protein | 214 | 5% helix, 45% strand | — |
| C | MRK16 Fab-fragment heavy chain | protein | 218 | 7% helix, 54% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 513 | 0.84 | 0.90 | 54 | R1Q |
| 2 | 361 | 0.80 | 0.90 | 50 | empty |
| 3 | 66 | 0.74 | 0.98 | 21 | empty |
| 4 | 60 | 0.74 | 0.98 | 18 | empty |
| 5 | 351 | 0.72 | 0.84 | 39 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1891 Ų buried · 15 hydrogen bonds · protein-protein
- A–C · 711 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 220 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 7A69 · Nanodisc reconstituted human ABCB1 in complex with MRK16 Fab and vincristine · the same entry in another collection · chain A against A, TM-score 1.00
- P08183 · AlphaFold monomer V2.0 prediction for ATP-dependent translocase ABCB1 (P08183) · a predicted model of the same protein · chain A against A, TM-score 0.88
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P08183
- Elsewhere: RCSB PDB 7A69 · PDBe 7A69 · UniProt P08183
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